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232,418 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Holm, M."

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Search Summary

This query matches 16 Structures.

Refinements

Structure Determination Methodology

experimental (16)

Scientific Name of Source Organism

	Escherichia coli K-12 (7)
	Homo sapiens (6)
	Escherichia coli BL21 (5)
	Escherichia coli (4)
	Oryctolagus cuniculus (3)
	Saccharomyces cerevisiae (2)
	Zindervirus SP6 (2)
	Actinoplanes sp. (1)

Taxonomy

	Bacteria (9)
	Eukaryota (9)
	Duplodnaviria (2)

Experimental Method

ELECTRON MICROSCOPY (16)

Polymer Entity Type

	Protein (16)
	RNA (16)

Refinement Resolution (Å)

	1.5 - 2.0 (1)
	2.0 - 2.5 (2)
	2.5 - 3.0 (10)
	3.5 - 4.0 (3)

Release Date

	2015 - 2019 (3)
	2020 - 2024 (13)

Enzyme Classification Name

	Lyases (6)
	Hydrolases (5)

Symmetry Type

Asymmetric (16)

AllSelected

1 to 16 of 16 Structures

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Explore in 3D

6GZ3	Download File View File

tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-1 (TI-POST-1)

Flis, J., Holm, M., Rundlet, E.J., Loerke, J., Hilal, T., Dabrowski, M., Buerger, J., Mielke, T., Blanchard, S.C., Spahn, C.M.T., Budkevich, T.V.

(2018) Cell Rep 25: 2676-2688.e7

Released	2018-12-05
Method	ELECTRON MICROSCOPY 3.6 Å
Organisms	Oryctolagus cuniculus Saccharomyces cerevisiae Zindervirus SP6
Macromolecule	Unique protein chains: 79 Unique nucleic acid chains: 7
Unique Ligands	GNP, MG, ZN

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6GZ4	Download File View File

tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-2 (TI-POST-2)

Flis, J., Holm, M., Rundlet, E.J., Loerke, J., Hilal, T., Dabrowski, M., Buerger, J., Mielke, T., Blanchard, S.C., Spahn, C.M.T., Budkevich, T.V.

(2018) Cell Rep 25: 2676-2688.e7

Released	2018-12-05
Method	ELECTRON MICROSCOPY 3.6 Å
Organisms	Oryctolagus cuniculus
Macromolecule	Unique protein chains: 79 Unique nucleic acid chains: 7
Unique Ligands	GNP, MG, ZN

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6GZ5	Download File View File

tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-3 (TI-POST-3)

Flis, J., Holm, M., Rundlet, E.J., Loerke, J., Hilal, T., Dabrowski, M., Buerger, J., Mielke, T., Blanchard, S.C., Spahn, C.M.T., Budkevich, T.V.

(2018) Cell Rep 25: 2676-2688.e7

Released	2018-12-05
Method	ELECTRON MICROSCOPY 3.5 Å
Organisms	Oryctolagus cuniculus Saccharomyces cerevisiae Zindervirus SP6
Macromolecule	Unique protein chains: 79 Unique nucleic acid chains: 7
Unique Ligands	GNP, MG, ZN

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7N1P	Download File View File

Elongating 70S ribosome complex in a classical pre-translocation (PRE-C) conformation

Rundlet, E.J., Holm, M., Schacherl, M., Natchiar, S.K., Altman, R.B., Spahn, C.M.T., Myasnikov, A.G., Blanchard, S.C.

(2021) Nature 595: 741-745

Released	2021-07-14
Method	ELECTRON MICROSCOPY 2.33 Å
Organisms	Escherichia coli BL21 Escherichia coli K-12
Macromolecule	Unique protein chains: 52 Unique nucleic acid chains: 6
Unique Ligands	ATP, MG, PUT, SPD, ZN

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7N2C	Download File View File

Elongating 70S ribosome complex in a fusidic acid-stalled intermediate state of translocation bound to EF-G(GDP) (INT2)

Rundlet, E.J., Holm, M., Schacherl, M., Natchiar, K.S., Altman, R.B., Spahn, C.M.T., Myasnikov, A.G., Blanchard, S.C.

(2021) Nature 595: 741-745

Released	2021-07-14
Method	ELECTRON MICROSCOPY 2.72 Å
Organisms	Escherichia coli Escherichia coli K-12
Macromolecule	Unique protein chains: 55 Unique nucleic acid chains: 6
Unique Ligands	ATP, FUA, GDP, MG, PUT, SPD, ZN

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7N2U	Download File View File

Elongating 70S ribosome complex in a hybrid-H1 pre-translocation (PRE-H1) conformation

Rundlet, E.J., Holm, M., Schacherl, M., Natchiar, K.S., Altman, R.B., Spahn, C.M.T., Myasnikov, A.G., Blanchard, S.C.

(2021) Nature 595: 741-745

Released	2021-07-14
Method	ELECTRON MICROSCOPY 2.53 Å
Organisms	Escherichia coli BL21 Escherichia coli K-12
Macromolecule	Unique protein chains: 50 Unique nucleic acid chains: 6
Unique Ligands	ATP, MG, PUT, SPD, ZN

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7N2V	Download File View File

Elongating 70S ribosome complex in a spectinomycin-stalled intermediate state of translocation bound to EF-G in an active, GTP conformation (INT1)

Rundlet, E.J., Holm, M., Schacherl, M., Natchiar, K.S., Altman, R.B., Spahn, C.M.T., Myasnikov, A.G., Blanchard, S.C.

(2021) Nature 595: 741-745

Released	2021-07-14
Method	ELECTRON MICROSCOPY 2.54 Å
Organisms	Escherichia coli BL21 Escherichia coli K-12
Macromolecule	Unique protein chains: 53 Unique nucleic acid chains: 6
Unique Ligands	ATP, GTP, MG, PUT, SCM, SPD, ZN

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7N30	Download File View File

Elongating 70S ribosome complex in a hybrid-H2* pre-translocation (PRE-H2*) conformation

Rundlet, E.J., Holm, M., Schacherl, M., Natchiar, K.S., Altman, R.B., Spahn, C.M.T., Myasnikov, A.G., Blanchard, S.C.

(2021) Nature 595: 741-745

Released	2021-07-14
Method	ELECTRON MICROSCOPY 2.66 Å
Organisms	Escherichia coli BL21 Escherichia coli K-12
Macromolecule	Unique protein chains: 50 Unique nucleic acid chains: 6
Unique Ligands	ATP, MG, PUT, SPD, ZN

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7N31	Download File View File

Elongating 70S ribosome complex in a post-translocation (POST) conformation

Rundlet, E.J., Holm, M., Schacherl, M., Natchiar, K.S., Altman, R.B., Spahn, C.M.T., Myasnikov, A.G., Blanchard, S.C.

(2021) Nature 595: 741-745

Released	2021-07-14
Method	ELECTRON MICROSCOPY 2.69 Å
Organisms	Escherichia coli BL21 Escherichia coli K-12
Macromolecule	Unique protein chains: 50 Unique nucleic acid chains: 6
Unique Ligands	ATP, MG, PUT, SPD, ZN

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7UG7	Download File View File

70S ribosome complex in an intermediate state of translocation bound to EF-G(GDP) stalled by Argyrin B

Rundlet, E.J., Wieland, M., Holm, M., Koller, T.O., Blanchard, S.C., Wilson, D.N.

(2022) Proc Natl Acad Sci U S A 119: e2114214119-e2114214119

Released	2022-05-18
Method	ELECTRON MICROSCOPY 2.58 Å
Organisms	Actinoplanes sp. Escherichia coli Escherichia coli K-12
Macromolecule	Unique protein chains: 54 Unique nucleic acid chains: 6
Unique Ligands	FME, GDP, MG, PHE, PUT, SPD, ZN

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8G5Y	Download File View File

mRNA decoding in human is kinetically and structurally distinct from bacteria (IC state)

Holm, M., Natchiar, K.S., Rundlet, E.J., Myasnikov, A.G., Altman, R.B., Blanchard, S.C.

(2023) Nature 617: 200-207

Released	2023-04-19
Method	ELECTRON MICROSCOPY 2.29 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 77 Unique nucleic acid chains: 6
Unique Ligands	3H3, ANM, K, MET, MG, PUT, SPD, ZN

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8G5Z	Download File View File

mRNA decoding in human is kinetically and structurally distinct from bacteria (GA state)

Holm, M., Natchiar, K.S., Rundlet, E.J., Myasnikov, A.G., Altman, R.B., Blanchard, S.C.

(2023) Nature 617: 200-207

Released	2023-04-19
Method	ELECTRON MICROSCOPY 2.64 Å
Organisms	Escherichia coli Homo sapiens
Macromolecule	Unique protein chains: 80 Unique nucleic acid chains: 7
Unique Ligands	3H3, ANM, GSP, K, MET, MG, PHE, PUT, SPD, ZIY, ZN

Explore in 3D

8G60	Download File View File

mRNA decoding in human is kinetically and structurally distinct from bacteria (CR state)

Holm, M., Natchiar, K.S., Rundlet, E.J., Myasnikov, A.G., Altman, R.B., Blanchard, S.C.

(2023) Nature 617: 200-207

Released	2023-04-19
Method	ELECTRON MICROSCOPY 2.54 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 79 Unique nucleic acid chains: 7
Unique Ligands	3H3, ANM, GSP, K, MET, MG, PHE, PUT, SPD, ZIY, ZN

Explore in 3D

8G61	Download File View File

mRNA decoding in human is kinetically and structurally distinct from bacteria (AC state)

Holm, M., Natchiar, K.S., Rundlet, E.J., Myasnikov, A.G., Altman, R.B., Blanchard, S.C.

(2023) Nature 617: 200-207

Released	2023-04-19
Method	ELECTRON MICROSCOPY 2.94 Å
Organisms	Escherichia coli Homo sapiens
Macromolecule	Unique protein chains: 77 Unique nucleic acid chains: 7
Unique Ligands	3H3, ANM, K, MET, MG, PUT, SPD, ZN

Explore in 3D

8G6J	Download File View File

mRNA decoding in human is kinetically and structurally distinct from bacteria (GA state 2)

Holm, M., Natchiar, K.S., Rundlet, E.J., Myasnikov, A.G., Altman, R.B., Blanchard, S.C.

(2023) Nature 617: 200-207

Released	2023-04-19
Method	ELECTRON MICROSCOPY 2.8 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 79 Unique nucleic acid chains: 7
Unique Ligands	3HE, GSP, HMT, K, MET, MG, PHE, PUT, SPD, YRB, ZN

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8GLP	Download File View File

mRNA decoding in human is kinetically and structurally distinct from bacteria (Consensus LSU focused refined structure)

Holm, M., Natchiar, K.S., Rundlet, E.J., Myasnikov, A.G., Watson, Z.L., Altman, R.B., Blanchard, S.C.

(2023) Nature 617: 200-207

Released	2023-04-19
Method	ELECTRON MICROSCOPY 1.67 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 75 Unique nucleic acid chains: 6
Unique Ligands	3H3, ANM, K, MET, MG, PUT, SPD, TRS, ZN

1 to 16 of 16 Structures

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